scholarly journals Partial Homology Relations - Satisfiability in Terms of Di-Cographs

2018 ◽  
pp. 403-415 ◽  
Author(s):  
Nikolai Nøjgaard ◽  
Nadia El-Mabrouk ◽  
Daniel Merkle ◽  
Nicolas Wieseke ◽  
Marc Hellmuth
Keyword(s):  
Partial Homology

Expression of Marek's disease virus (MDV) serotype 2 gene which has partial homology with MDV serotype 1 pp38 gene

1995 ◽  
Vol 35 (2) ◽  
pp. 223-229 ◽  
Author(s):  
Mitsuru Ono ◽  
Ken Maeda ◽  
Yasushi Kawaguchi ◽  
Hyung-Kwan Jang ◽  
Yukinobu Tohya ◽  
...  
Keyword(s):  
Disease Virus ◽  
Marek's Disease Virus ◽  
Marek's Disease ◽  
Marek’S Disease Virus ◽  
Marek’S Disease ◽  
Serotype 1 ◽  
Pp38 Gene ◽  
Partial Homology

scholarly journals Seleksi Primer LCO – HCO, Primer bird-f1 – HCO Dan Primer bch – bcl Untuk Amplifikasi Gen COI DNA Mitokondria Itik Magelang (Anas javanica)

2014 ◽  
Vol 16 (2) ◽  
pp. 83
Author(s):  
Sonny Abdi Setiyawan ◽  
Anto Budiharjo ◽  
Hermin Pancasakti Kusumaningrum
Keyword(s):  
Mitochondrial Dna ◽  
Key Words ◽  
Coi Gene ◽  
Wild Type ◽  
High Production ◽  
Partial Homology ◽  
Selection Of

Magelang duck is a wild type of local duck from Indonesia. The advantagesof Magelangduckcompare tootherlocalduck from Indonesiaareabilityto livein the highlandsandlowlands and high production of egg and meat. Geneticcharacterization of Magelangduck still not available until now.The aim of the research is selectprimers forampliflying COIgeneof mitochondrialDNAof MagelangduckusingLCO-HCO, bird-f1 -HCO, andbcl-bch primers.The research methodwas DNAisolationfrom Magelangduck. Followed by, selection of primer in silicoto find homologywithin COIsequenceusing ClustalX, Genedoc, and FastPCR programs. Amplification of COIgenewas performedusing PCRwith all primerpairs. Result showed partial homology with all primer in COI sequence. TheamplificationusingtheLCO-HCO primer produced  primerdimer.Primerbirdf1-HCOand bch-bcl primers showed no amplification.   Key words: Magelang duck, COI gene, mitochondrial DNA, primer

scholarly journals Assignment of the mouse desmin gene to chromosome 1 band C3

1990 ◽  
Vol 55 (2) ◽  
pp. 101-105 ◽  
Author(s):  
Zhenlin Li ◽  
Marie-Geneviève Mattei ◽  
Jean-François Mattei ◽  
Denise Paulin
Keyword(s):  
Human Chromosome ◽  
Gene Cluster ◽  
Intermediate Filament ◽  
Chromosomal Localization ◽  
Chromosome 1 ◽  
Chromosome 2 ◽  
Gene Coding ◽  
Partial Homology ◽  
Conserved Gene

SummaryThe chromosomal localization of the mouse gene coding for desmin, one of the muscle-specific intermediate filament subunits, was determined by in situ hybridization using a specific 3H-labelled DNA probe. There is only one copy of the desmin gene and it is located on chromosome 1 in the band C3. This result adds an eleventh locus to a conserved gene cluster and confirms the partial homology that exists between the long arm of human chromosome 2 and chromosome 1 of the mouse.

HYBRIDIZATION OF TRITICUM AND AGROPYRON: II. CYTOLOGY OF THE MALE PARENTS AND F1 GENERATION

1936 ◽  
Vol 14c (5) ◽  
pp. 203-214 ◽  
Author(s):  
F. H. Peto
Keyword(s):  
Genetic Factors ◽  
Alternative Explanation ◽  
Chromosome Doubling ◽  
Genetic Constitution ◽  
Tetraploid Species ◽  
Pairing Behavior ◽  
Partial Homology ◽  
F1 Generation

Meiosis was studied in A. glaucum (2n = 42), A. elongatum (2n = 70), and in the F1 of these species crossed on varieties of T. dicoccum, T. durum and T. vulgare. In A. glaucum a large proportion of the chromosomes formed bivalents with occasional univalents and quadrivalents. A. elongatum was very unusual in that uni-, bi-, tri-, quadri-, quinqui-, sexa-, and octavalent configurations were observed. With one exception the A. glaucum × Triticum hybrids averaged 4.8–6.2 bivalents per nucleus, thus indicating partial homology between one set of chromosomes from each of the parents. In the A. elongatum × Triticum hybrids, numerous multivalent configurations were observed and it was concluded that auto- as well as allosyndesis had occurred. Approximately one set of chromosomes remained unpaired in one collection of T. dicoccum var. Vernal × A. elongatum and approximately two sets remained unpaired in crosses between three varieties of T. vulgare and A. elongatum.Two of the crosses exhibited an abnormally small amount of pairing, an effect most plausibly attributed to the reaction of genetic factors limiting prophase pairing.Tentative conclusions have been made regarding the origin and genetic constitution of A. elongatum from the pairing behavior of the chromosomes in this species and its hybrids. It appears likely that A. elongatum arose through hybridization between hexaploid and tetraploid species of Agropyron with subsequent chromosome doubling. An alternative explanation is also suggested.

scholarly journals Formation of the L1Hs retroelement in the intron of the MGMT gene of hominoidea

2019 ◽  
Vol 24 ◽  
pp. 338-344
Author(s):  
O. V. Pidpala ◽  
L. L. Lukash
Keyword(s):  
New World ◽  
Cluster Structure ◽  
Mobile Genetic Elements ◽  
Nucleotide Sequences ◽  
Human Being ◽  
Mgmt Gene ◽  
Mammalian Genomes ◽  
Partial Homology ◽  
L1 Element ◽  
Human Specific

Aim. Analyze the formation of a human-specific L1Hs element in the intron 3 of the MGMT gene on an example of a hominid.  Methods. The results of the search and identification of mobile genetic elements were performed using the CENSOR program. The homology between nucleotide sequences was determined by BLAST 2.6.1. Results. The components of the cluster, where the L1Hs element in the human being was formed, are fragments of the L1PA6 element, which are common in the monkeys of the Old and New World. In the gibbon, among the L1 element groups, there are representatives of older subfamilies (L1PB, L1MC, L1MD and L1ME), and the partial homology to the L1Hs of the element is predominantly of elements of groups that have arisen in the mammalian genomes. Conclusions. Formation of a human-specific L1Hs element occurred during the evolution of Hominoidea in parallel with the formation of the cluster structure of MGE in humans from different subfamilies of LINE1-elements whose component components, obviously, also involved in the formation of the L1Hs element. Keywords: Hominoidea, MGMT gene, intron 3, human-specific L1Hs element.

scholarly journals Gene Homologies Identified between Trypanosoma cruzi Antigen 36 and Mammalian TRIM21 Genes Using Bioinformatics Analysis

2021 ◽  
Author(s):  
Martin A Winkler ◽  
Alfred A Pan
Keyword(s):  
Dna Sequences ◽  
Protein Sequence ◽  
Mammalian Species ◽  
Type I ◽  
Reading Frame ◽  
Chagas Cardiomyopathy ◽  
Gene Homology ◽  
Partial Homology ◽  
Repetitive Motif ◽  
Rats And Mice

Abstract Background: We previously reported that a Human Ro52 gene sequence (TRIM21) produced a significant stretch of protein sequence homologous to T. cruzi Antigen 36 (Ag 36) protein sequence, when Ag 36 was translated in the second reading frame. Comparison of their respective DNA sequences demonstrated a 114 nucleotide region of both genes having ~70 percent partial homology. After Ro52 was shown to be an E3 Ubiquitin dependent Type I ligase for transcription factors for Interferon genes, we proposed that the Ag 36 gene, which contains a repetitive motif within it, may function to repress Ro52 in the human heart through RNA interference, or other unknown mechanism, giving rise to autoimmunity found in Chronic Chagas Cardiomyopathy (CCC).Results: To test that hypothesis, we compared various mammalian TRIM genes to the T. cruzi Ag 36 DNA sequence using the Needleman-Wunsch algorithm in the http:\\usegalaxy.eu bioinformatics tool base. In addition to human and chimpanzee, TRIM21 comparable gene regions from canine, shrew, ferret, bat, feline, and armadillo, and aardvark showed homology to the gene for Ag 36 ranging from 68 to 30 percent. However, mouse and eight other mammalian species showed no significant homology. Since mice have been shown to have severe cardiac cardiomyopathy after infection, but their TRIM21 was not homologous to Ag 36 in this study, we conclude that the gene homology has no causative link to CCC.Conclusions: In addition to human TRIM21, eight mammalian species showed partial gene homology to T. cruzi Ag 36, and some of these have been demonstrated to have CCC. However, rats and mice TRIM21 showed no partial homology to Ag 36. Since these species have been demonstrated to have CCC, the partial gene homology between Ag36 and TRIM 21 may not be causative or associated with CCC, as was originally hypothesized.

scholarly journals Possible identification of CENP-C in fish and the presence of the CENP-C motif in M18BP1 of vertebrates.

F1000Research ◽  
2015 ◽  
Vol 4 ◽  
pp. 474 ◽  
Author(s):  
Leos Kral
Keyword(s):  
Plant Species ◽  
Fish Species ◽  
Protein Sequences ◽  
Base Component ◽  
Centromeric Protein ◽  
Partial Homology ◽  
Fish Proteins

The centromeric protein CENP-C is a base component of the kinetochore. This protein, along with CENP-A has been shown to adaptively evolve in a number of animal and plant species. In order to determine if CENP-C also evolves in fish species, I attempted to retrieve fish CENP-C sequences from GenBank. No Teleostei CENP-C sequences were found either by name or by BLASTP searches with the vertebrate CENP-C motif sequence. A number of putative Teleostei protein sequences were identified in GenBank that have homology to the C-terminal cupin domain of vertebrate CENP-C. These proteins only have partial homology to the CENP-C motif, but evidence is presented that makes it likely that these fish proteins are orthologs of CENP-C. Interestingly, it was also discovered that the CENP-C motif sequence is also mostly present in M18BP1 proteins of fish and some other vertebrates but not in mammals. This finding may have implications for CENP-C and M18BP1 assembly in centromeric regions of different vertebrate taxa.

scholarly journals Ab Initio Construction and Evolutionary Analysis of Protein-Coding Gene Families with Partially Homologous Relationships: Closely Related Drosophila Genomes as a Case Study

2020 ◽  
Vol 12 (3) ◽  
pp. 185-202
Author(s):  
Xia Han ◽  
Jindan Guo ◽  
Erli Pang ◽  
Hongtao Song ◽  
Kui Lin
Keyword(s):  
Gene Family ◽  
De Novo ◽  
Gene Families ◽  
Gene Family Evolution ◽  
Evolutionary Analysis ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Genome Phylogeny ◽  
Partial Homology

Abstract How have genes evolved within a well-known genome phylogeny? Many protein-coding genes should have evolved as a whole at the gene level, and some should have evolved partly through fragments at the subgene level. To comprehensively explore such complex homologous relationships and better understand gene family evolution, here, with de novo-identified modules, the subgene units which could consecutively cover proteins within a set of closely related species, we applied a new phylogeny-based approach that considers evolutionary models with partial homology to classify all protein-coding genes in nine Drosophila genomes. Compared with two other popular methods for gene family construction, our approach improved practical gene family classifications with a more reasonable view of homology and provided a much more complete landscape of gene family evolution at the gene and subgene levels. In the case study, we found that most expanded gene families might have evolved mainly through module rearrangements rather than gene duplications and mainly generated single-module genes through partial gene duplication, suggesting that there might be pervasive subgene rearrangement in the evolution of protein-coding gene families. The use of a phylogeny-based approach with partial homology to classify and analyze protein-coding gene families may provide us with a more comprehensive landscape depicting how genes evolve within a well-known genome phylogeny.

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